miRNA display CGI


Results 1 - 14 of 14 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
20840 3' -54.6 NC_004689.1 + 50636 0.66 0.827145
Target:  5'- uGCaguguUCCCCAGGGUUUUUCGUGa -3'
miRNA:   3'- gCGguau-GGGGGUUUCGAAGAGCGCg -5'
20840 3' -54.6 NC_004689.1 + 39950 0.66 0.821725
Target:  5'- gCGCCGUGuugguuugacccaguUCCCCAAcacGGCcUC-CGUGCu -3'
miRNA:   3'- -GCGGUAU---------------GGGGGUU---UCGaAGaGCGCG- -5'
20840 3' -54.6 NC_004689.1 + 5165 0.66 0.808809
Target:  5'- aCGCCGUGCCUguUCGucGCUgauaGCGCc -3'
miRNA:   3'- -GCGGUAUGGG--GGUuuCGAagagCGCG- -5'
20840 3' -54.6 NC_004689.1 + 46369 0.66 0.799365
Target:  5'- uCGCCGguuaugaaaccuUGCCUgCGAAGCUcggCGUGCg -3'
miRNA:   3'- -GCGGU------------AUGGGgGUUUCGAagaGCGCG- -5'
20840 3' -54.6 NC_004689.1 + 32038 0.67 0.77005
Target:  5'- gCGUCccuUACCgUCCGcaguuGGCUUCUCGgGCa -3'
miRNA:   3'- -GCGGu--AUGG-GGGUu----UCGAAGAGCgCG- -5'
20840 3' -54.6 NC_004689.1 + 1631 0.67 0.77005
Target:  5'- uCGCCcugaAUCCCUuuGGCU--UCGCGCu -3'
miRNA:   3'- -GCGGua--UGGGGGuuUCGAagAGCGCG- -5'
20840 3' -54.6 NC_004689.1 + 63764 0.67 0.759986
Target:  5'- uGCaCGUGCCCUCGAuGGUcUC-CGCGUg -3'
miRNA:   3'- gCG-GUAUGGGGGUU-UCGaAGaGCGCG- -5'
20840 3' -54.6 NC_004689.1 + 19594 0.67 0.72907
Target:  5'- uCGCgCAUACCCUCugcGGCUggcuugauguUCUCGCu- -3'
miRNA:   3'- -GCG-GUAUGGGGGuu-UCGA----------AGAGCGcg -5'
20840 3' -54.6 NC_004689.1 + 24830 0.68 0.697302
Target:  5'- uGCCGUACCCgCCAcGGUg---CGCGa -3'
miRNA:   3'- gCGGUAUGGG-GGUuUCGaagaGCGCg -5'
20840 3' -54.6 NC_004689.1 + 45395 0.68 0.685499
Target:  5'- aG-CGUGCCUCCGAagugucggcacacGGCacggaugUCUCGCGCg -3'
miRNA:   3'- gCgGUAUGGGGGUU-------------UCGa------AGAGCGCG- -5'
20840 3' -54.6 NC_004689.1 + 61292 0.68 0.675797
Target:  5'- uGCCAaACCCCCAucGGGUcaaucgCUCGuCGUg -3'
miRNA:   3'- gCGGUaUGGGGGU--UUCGaa----GAGC-GCG- -5'
20840 3' -54.6 NC_004689.1 + 10489 0.7 0.604121
Target:  5'- gGCCAUGCCCgUAGGGCagCcgccuucggaucgauUUGCGCg -3'
miRNA:   3'- gCGGUAUGGGgGUUUCGaaG---------------AGCGCG- -5'
20840 3' -54.6 NC_004689.1 + 66201 0.7 0.599783
Target:  5'- uGCCGUGuaCCCGGuAGCUgggUUCGCGUg -3'
miRNA:   3'- gCGGUAUggGGGUU-UCGAa--GAGCGCG- -5'
20840 3' -54.6 NC_004689.1 + 61410 0.73 0.434766
Target:  5'- gGCCAUGCaCgCCAAcGCgcCUCGCGUg -3'
miRNA:   3'- gCGGUAUG-GgGGUUuCGaaGAGCGCG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.